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You searched for: EV180059 (EV-TRACK ID)

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Experiment number
  • If needed, multiple experiments were identified in a single publication based on differing sample types, isolation protocols and/or vesicle types of interest.
Species
  • Species of origin of the EVs.
Isolation protocol
  • Gives a short, non-chronological overview of the different steps of the isolation protocol.
    • dUC = differential ultracentrifugation
    • DG = density gradient
    • UF = ultrafiltration
    • SEC = size-exclusion chromatography
Experiment number
  • Experiments differ in isolation protocol/particle analysis/sample origin/sample type
Experiment number
  • Experiments differ in isolation protocol/particle analysis/sample origin/sample type
Experiment number
  • Experiments differ in isolation protocol/particle analysis/sample origin/sample type
Experiment number
  • Experiments differ in isolation protocol/particle analysis/sample origin/sample type
Experiment number
  • Experiments differ in isolation protocol/particle analysis/sample origin/sample type
Experiment number
  • Experiments differ in isolation protocol/particle analysis/sample origin/sample type
Details EV-TRACK ID Experiment nr. Species Sample type Isolation protocol First author Year EV-METRIC
EV180059 6/6 Gut microbiota Stool DG
Size-exclusion chromatography (non-commercial)
Density gradient
SEC
Tulkens J 2018 87%

Study summary

Full title
All authors
Tulkens J, Vergauwen G, Van Deun J, Geeurickx E, Dhondt B, Lippens L, De Scheerder MA, Miinalainen I, Rappu P, De Geest BG, Vandecasteele K, Laukens D, Vandekerckhove L, Denys H, Vandesompele J, De Wever O, Hendrix A.
Journal
Gut
Abstract
(show more...) (hide)
EV-METRIC
87% (75th percentile of all experiments on the same sample type)
 Reported
 Not reported
 Not applicable
EV-enriched proteins
Protein analysis: analysis of three or more EV-enriched proteins
non EV-enriched protein
Protein analysis: assessment of a non-EV-enriched protein
qualitative and quantitative analysis
Particle analysis: implementation of both qualitative and quantitative methods
electron microscopy images
Particle analysis: inclusion of a widefield and close-up electron microscopy image
density gradient
Isolation method: density gradient, at least as validation of results attributed to EVs
EV density
Isolation method: reporting of obtained EV density
ultracentrifugation specifics
Isolation method: reporting of g-forces, duration and rotor type of ultracentrifugation steps
antibody specifics
Protein analysis: antibody clone/reference number and dilution
lysate preparation
Protein analysis: lysis buffer composition
Study data
Sample type
Stool
Sample origin
Control condition
Focus vesicles
gut bacteria-derived EV
Isolation protocol
Isolation protocol
  • Gives a short, non-chronological overview of the
    different steps of the isolation protocol.
    • dUC = differential ultracentrifugation
    • DG = density gradient
    • UF = ultrafiltration
    • SEC = size-exclusion chromatography
DG + Size-exclusion chromatography (non-commercial) + Density gradient + SEC
Protein markers
EV: Proteomics/ Western blot/ LPS/ OmpA/ Limulus Amebocyte Lysate Assay
non-EV: Alix/ flotilin-1/ CD9
Proteomics
yes
EV density (g/ml)
1.141-1.186
Show all info
Study aim
Function/Biomarker/Identification of content (omics approaches)
Sample
Species
Gut microbiota
Sample Type
Stool
Sample Condition
Control condition
Isolation Method
Density gradient
Density medium
Iodixanol
Type
Discontinuous
Number of initial discontinuous layers
4
Lowest density fraction
10
Highest density fraction
50
Total gradient volume, incl. sample (mL)
16.5
Sample volume (mL)
0.667
Orientation
Bottom-up
Rotor type
SW 32.1 Ti
Speed (g)
100000
Duration (min)
1080
Fraction volume (mL)
1
Fraction processing
Size-exclusion chromatography
Size-exclusion chromatography
Total column volume (mL)
10
Sample volume/column (mL)
2
Resin type
Sepharose CL-2B
Characterization: Protein analysis
Protein Concentration Method
Fluorometric assay (e.g. Qubit, NanoOrange,...)
Western Blot
Antibody details provided?
Yes
Antibody dilution provided?
Yes
Lysis buffer provided?
Yes
Detected EV-associated proteins
OmpA
Not detected contaminants
Alix/ flotilin-1/ CD9
Proteomics database
No
Detected EV-associated proteins
LPS
Characterization: Particle analysis
NTA
Report type
Size range/distribution
Reported size (nm)
50-300
EV concentration
Yes
Particle yield
particles/ml start sample
EM
EM-type
Transmission-EM
Image type
Wide-field
EV180059 1/6 Gram-negative bacteria Cell culture supernatant DG
Size-exclusion chromatography (non-commercial)
Density gradient
SEC
Tulkens J 2018 75%

Study summary

Full title
All authors
Tulkens J, Vergauwen G, Van Deun J, Geeurickx E, Dhondt B, Lippens L, De Scheerder MA, Miinalainen I, Rappu P, De Geest BG, Vandecasteele K, Laukens D, Vandekerckhove L, Denys H, Vandesompele J, De Wever O, Hendrix A.
Journal
Gut
Abstract
(show more...) (hide)
EV-METRIC
75% (96th percentile of all experiments on the same sample type)
 Reported
 Not reported
 Not applicable
EV-enriched proteins
Protein analysis: analysis of three or more EV-enriched proteins
non EV-enriched protein
Protein analysis: assessment of a non-EV-enriched protein
qualitative and quantitative analysis
Particle analysis: implementation of both qualitative and quantitative methods
electron microscopy images
Particle analysis: inclusion of a widefield and close-up electron microscopy image
density gradient
Isolation method: density gradient, at least as validation of results attributed to EVs
EV density
Isolation method: reporting of obtained EV density
ultracentrifugation specifics
Isolation method: reporting of g-forces, duration and rotor type of ultracentrifugation steps
antibody specifics
Protein analysis: antibody clone/reference number and dilution
lysate preparation
Protein analysis: lysis buffer composition
Study data
Sample type
Cell culture supernatant
Sample origin
Control condition
Focus vesicles
Escherichia coli
Isolation protocol
Isolation protocol
  • Gives a short, non-chronological overview of the
    different steps of the isolation protocol.
    • dUC = differential ultracentrifugation
    • DG = density gradient
    • UF = ultrafiltration
    • SEC = size-exclusion chromatography
DG + Size-exclusion chromatography (non-commercial) + Density gradient + SEC
Protein markers
EV: Limulus Amebocyte Lysate assay/ LPS/ OmpA/ Western blot
non-EV:
Proteomics
no
EV density (g/ml)
1.141-1.186
Show all info
Study aim
Function/Biomarker/Identification of content (omics approaches)
Sample
Species
Gram-negative bacteria
Sample Type
Cell culture supernatant
Sample Condition
Control condition
EV-producing cells
Escherichia coli Nissle 1917
EV-harvesting Medium
Serum free medium
Isolation Method
Density gradient
Density medium
Iodixanol
Type
Discontinuous
Number of initial discontinuous layers
4
Lowest density fraction
10
Highest density fraction
50
Total gradient volume, incl. sample (mL)
16.5
Sample volume (mL)
0.667
Orientation
Bottom-up
Rotor type
SW 32.1 Ti
Speed (g)
100000
Duration (min)
1080
Fraction volume (mL)
1
Fraction processing
Centrifugation
Size-exclusion chromatography
Total column volume (mL)
10
Sample volume/column (mL)
2
Resin type
Sepharose CL-2B
Characterization: Protein analysis
Protein Concentration Method
Fluorometric assay (e.g. Qubit, NanoOrange,...)
Western Blot
Antibody details provided?
Yes
Antibody dilution provided?
Yes
Lysis buffer provided?
Yes
Detected EV-associated proteins
OmpA/ LPS
Proteomics database
No
Detected EV-associated proteins
LPS
Characterization: Particle analysis
NTA
Report type
Size range/distribution
Reported size (nm)
50-300
EV concentration
Yes
EM
EM-type
Immuno-EM
Image type
Close-up, Wide-field
EV180059 2/6 Gut microbiota Blood plasma DG
Size-exclusion chromatography (non-commercial)
Density gradient
SEC
Tulkens J 2018 42%

Study summary

Full title
All authors
Tulkens J, Vergauwen G, Van Deun J, Geeurickx E, Dhondt B, Lippens L, De Scheerder MA, Miinalainen I, Rappu P, De Geest BG, Vandecasteele K, Laukens D, Vandekerckhove L, Denys H, Vandesompele J, De Wever O, Hendrix A.
Journal
Gut
Abstract
(show more...) (hide)
EV-METRIC
42% (85th percentile of all experiments on the same sample type)
 Reported
 Not reported
 Not applicable
EV-enriched proteins
Protein analysis: analysis of three or more EV-enriched proteins
non EV-enriched protein
Protein analysis: assessment of a non-EV-enriched protein
qualitative and quantitative analysis
Particle analysis: implementation of both qualitative and quantitative methods
electron microscopy images
Particle analysis: inclusion of a widefield and close-up electron microscopy image
density gradient
Isolation method: density gradient, at least as validation of results attributed to EVs
EV density
Isolation method: reporting of obtained EV density
ultracentrifugation specifics
Isolation method: reporting of g-forces, duration and rotor type of ultracentrifugation steps
antibody specifics
Protein analysis: antibody clone/reference number and dilution
lysate preparation
Protein analysis: lysis buffer composition
Study data
Sample type
Blood plasma
Sample origin
Control condition
Focus vesicles
LPS-positive bacterial EV
Isolation protocol
Isolation protocol
  • Gives a short, non-chronological overview of the
    different steps of the isolation protocol.
    • dUC = differential ultracentrifugation
    • DG = density gradient
    • UF = ultrafiltration
    • SEC = size-exclusion chromatography
DG + Size-exclusion chromatography (non-commercial) + Density gradient + SEC
Protein markers
EV: LPS/ OmpA
non-EV:
Proteomics
no
EV density (g/ml)
1.141-1.186
Show all info
Study aim
Function/Biomarker/Identification of content (omics approaches)
Sample
Species
Gut microbiota
Sample Type
Blood plasma
Sample Condition
Control condition
Isolation Method
Density gradient
Density medium
Iodixanol
Type
Discontinuous
Number of initial discontinuous layers
4
Lowest density fraction
5
Highest density fraction
40
Total gradient volume, incl. sample (mL)
16,5
Sample volume (mL)
1
Orientation
Top-down
Rotor type
SW 32.1 Ti
Speed (g)
100000
Duration (min)
1080
Fraction volume (mL)
1
Fraction processing
Size-exclusion chromatography
Size-exclusion chromatography
Total column volume (mL)
10
Sample volume/column (mL)
2
Resin type
Sepharose CL-2B
Characterization: Protein analysis
Protein Concentration Method
Fluorometric assay (e.g. Qubit, NanoOrange,...)
Western Blot
Antibody details provided?
Yes
Antibody dilution provided?
Yes
Lysis buffer provided?
Yes
Proteomics database
No
Detected EV-associated proteins
LPS
Characterization: Particle analysis
EV180059 3/6 Gut microbiota Blood plasma Size-exclusion chromatography (non-commercial)
SEC
Tulkens J 2018 42%

Study summary

Full title
All authors
Tulkens J, Vergauwen G, Van Deun J, Geeurickx E, Dhondt B, Lippens L, De Scheerder MA, Miinalainen I, Rappu P, De Geest BG, Vandecasteele K, Laukens D, Vandekerckhove L, Denys H, Vandesompele J, De Wever O, Hendrix A.
Journal
Gut
Abstract
(show more...) (hide)
EV-METRIC
42% (85th percentile of all experiments on the same sample type)
 Reported
 Not reported
 Not applicable
EV-enriched proteins
Protein analysis: analysis of three or more EV-enriched proteins
non EV-enriched protein
Protein analysis: assessment of a non-EV-enriched protein
qualitative and quantitative analysis
Particle analysis: implementation of both qualitative and quantitative methods
electron microscopy images
Particle analysis: inclusion of a widefield and close-up electron microscopy image
density gradient
Isolation method: density gradient, at least as validation of results attributed to EVs
EV density
Isolation method: reporting of obtained EV density
ultracentrifugation specifics
Isolation method: reporting of g-forces, duration and rotor type of ultracentrifugation steps
antibody specifics
Protein analysis: antibody clone/reference number and dilution
lysate preparation
Protein analysis: lysis buffer composition
Study data
Sample type
Blood plasma
Sample origin
Inflammatory bowel disease
Focus vesicles
LPS-positive bacterial EV
Isolation protocol
Isolation protocol
  • Gives a short, non-chronological overview of the
    different steps of the isolation protocol.
    • dUC = differential ultracentrifugation
    • DG = density gradient
    • UF = ultrafiltration
    • SEC = size-exclusion chromatography
Size-exclusion chromatography (non-commercial) + SEC
Protein markers
EV: LPS/ OmpA
non-EV:
Proteomics
no
Show all info
Study aim
Function/Biomarker/Identification of content (omics approaches)
Sample
Species
Gut microbiota
Sample Type
Blood plasma
Sample Condition
Inflammatory bowel disease
Isolation Method
Size-exclusion chromatography
Total column volume (mL)
10
Sample volume/column (mL)
2
Resin type
Sepharose CL-2B
Characterization: Protein analysis
Protein Concentration Method
Fluorometric assay (e.g. Qubit, NanoOrange,...)
Western Blot
Antibody details provided?
Yes
Antibody dilution provided?
Yes
Lysis buffer provided?
Yes
Proteomics database
No
Detected EV-associated proteins
LPS
Characterization: Particle analysis
EM
EM-type
Immuno-EM
Image type
Close-up
EV180059 5/6 Gut microbiota Blood plasma Size-exclusion chromatography (non-commercial)
No Extra Isolation steps
SEC
Tulkens J 2018 42%

Study summary

Full title
All authors
Tulkens J, Vergauwen G, Van Deun J, Geeurickx E, Dhondt B, Lippens L, De Scheerder MA, Miinalainen I, Rappu P, De Geest BG, Vandecasteele K, Laukens D, Vandekerckhove L, Denys H, Vandesompele J, De Wever O, Hendrix A.
Journal
Gut
Abstract
(show more...) (hide)
EV-METRIC
42% (85th percentile of all experiments on the same sample type)
 Reported
 Not reported
 Not applicable
EV-enriched proteins
Protein analysis: analysis of three or more EV-enriched proteins
non EV-enriched protein
Protein analysis: assessment of a non-EV-enriched protein
qualitative and quantitative analysis
Particle analysis: implementation of both qualitative and quantitative methods
electron microscopy images
Particle analysis: inclusion of a widefield and close-up electron microscopy image
density gradient
Isolation method: density gradient, at least as validation of results attributed to EVs
EV density
Isolation method: reporting of obtained EV density
ultracentrifugation specifics
Isolation method: reporting of g-forces, duration and rotor type of ultracentrifugation steps
antibody specifics
Protein analysis: antibody clone/reference number and dilution
lysate preparation
Protein analysis: lysis buffer composition
Study data
Sample type
Blood plasma
Sample origin
Therapy-induced intestinal mucositis
Focus vesicles
LPS-positive bacterial EV
Isolation protocol
Isolation protocol
  • Gives a short, non-chronological overview of the
    different steps of the isolation protocol.
    • dUC = differential ultracentrifugation
    • DG = density gradient
    • UF = ultrafiltration
    • SEC = size-exclusion chromatography
Size-exclusion chromatography (non-commercial) + No Extra Isolation steps + SEC
Protein markers
EV: LPS/ OmpA
non-EV:
Proteomics
no
Show all info
Study aim
Function/Biomarker/Identification of content (omics approaches)
Sample
Species
Gut microbiota
Sample Type
Blood plasma
Sample Condition
Therapy-induced intestinal mucositis
Isolation Method
Size-exclusion chromatography
Total column volume (mL)
10
Sample volume/column (mL)
2
Resin type
Sepharose CL-2B
Characterization: Protein analysis
Protein Concentration Method
Fluorometric assay (e.g. Qubit, NanoOrange,...)
Western Blot
Antibody details provided?
Yes
Antibody dilution provided?
Yes
Lysis buffer provided?
Yes
Proteomics database
No
Detected EV-associated proteins
LPS
Characterization: Particle analysis
EM
EM-type
Immuno-EM
Image type
Close-up
EV180059 4/6 Gut microbiota Blood plasma Size-exclusion chromatography (non-commercial)
SEC
Tulkens J 2018 28%

Study summary

Full title
All authors
Tulkens J, Vergauwen G, Van Deun J, Geeurickx E, Dhondt B, Lippens L, De Scheerder MA, Miinalainen I, Rappu P, De Geest BG, Vandecasteele K, Laukens D, Vandekerckhove L, Denys H, Vandesompele J, De Wever O, Hendrix A.
Journal
Gut
Abstract
(show more...) (hide)
EV-METRIC
28% (69th percentile of all experiments on the same sample type)
 Reported
 Not reported
 Not applicable
EV-enriched proteins
Protein analysis: analysis of three or more EV-enriched proteins
non EV-enriched protein
Protein analysis: assessment of a non-EV-enriched protein
qualitative and quantitative analysis
Particle analysis: implementation of both qualitative and quantitative methods
electron microscopy images
Particle analysis: inclusion of a widefield and close-up electron microscopy image
density gradient
Isolation method: density gradient, at least as validation of results attributed to EVs
EV density
Isolation method: reporting of obtained EV density
ultracentrifugation specifics
Isolation method: reporting of g-forces, duration and rotor type of ultracentrifugation steps
antibody specifics
Protein analysis: antibody clone/reference number and dilution
lysate preparation
Protein analysis: lysis buffer composition
Study data
Sample type
Blood plasma
Sample origin
HIV
Focus vesicles
LPS-positive bacterial EV
Isolation protocol
Isolation protocol
  • Gives a short, non-chronological overview of the
    different steps of the isolation protocol.
    • dUC = differential ultracentrifugation
    • DG = density gradient
    • UF = ultrafiltration
    • SEC = size-exclusion chromatography
Size-exclusion chromatography (non-commercial) + SEC
Protein markers
EV: LPS/ OmpA
non-EV:
Proteomics
no
Show all info
Study aim
Function/Biomarker/Identification of content (omics approaches)
Sample
Species
Gut microbiota
Sample Type
Blood plasma
Sample Condition
HIV
Isolation Method
Size-exclusion chromatography
Total column volume (mL)
10
Sample volume/column (mL)
2
Resin type
Sepharose CL-2B
Characterization: Protein analysis
Protein Concentration Method
Fluorometric assay (e.g. Qubit, NanoOrange,...)
Western Blot
Antibody details provided?
Yes
Antibody dilution provided?
Yes
Lysis buffer provided?
Yes
Proteomics database
No
Detected EV-associated proteins
LPS
Characterization: Particle analysis
1 - 6 of 6
  • dUC = differential ultracentrifugation
  • DG = density gradient
  • UF = ultrafiltration
  • SEC = size-exclusion chromatography
EV-TRACK ID
EV180059
species
Gut
microbiota
Gram-negative
bacteria
Gut
microbiota
Gut
microbiota
Gut
microbiota
Gut
microbiota
sample type
Stool
Cell
culture
Blood
plasma
Blood
plasma
Blood
plasma
Blood
plasma
cell type
NA
Escherichia
coli
Nissle
1917
NA
NA
NA
NA
medium
NA
Serum
free
medium
NA
NA
NA
NA
condition
Control
condition
Control
condition
Control
condition
Inflammatory
bowel
disease
Therapy-induced
intestinal
mucositis
HIV
isolation protocol
DG
Size-exclusion
chromatography
(non-commercial)
Density
gradient
SEC
DG
Size-exclusion
chromatography
(non-commercial)
Density
gradient
SEC
DG
Size-exclusion
chromatography
(non-commercial)
Density
gradient
SEC
Size-exclusion
chromatography
(non-commercial)
SEC
Size-exclusion
chromatography
(non-commercial)
No
Extra
Isolation
steps
SEC
Size-exclusion
chromatography
(non-commercial)
SEC
vesicle related term
gut
bacteria-derived
EV
Escherichia
coli
LPS-positive
bacterial
EV
LPS-positive
bacterial
EV
LPS-positive
bacterial
EV
LPS-positive
bacterial
EV
Exp. nr.
6
1
2
3
5
4
EV-METRIC %
87
75
42
42
42
28